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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggatatttttgtgttactgtgatgacagcaatagcaggccatttatttcttgtgtttcaatttagttgctgatttcagaatcttccatgtctaattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCCGATTTATCTAAGGAAAAGA

Basic information

species Glycine max
transcript GLYMA05G32030.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------------gtatgggatatttttgtgttactgtgatgacag--------caatagcaggccatttatttcttgtgtttcaatttagt--tgctgatttcag---aatcttccatgtctaattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCCGATTTATCTAAGGAAAAGA
                                           ||    | ||||  ||||  | | || ||           | | | |    ||||  || ||| |||  || ||  |  ||||  |||      |||  |       | | | |  |||||||  ||||| |||| ||||| |||||||||||||||||||| |||||||| ||||| ||||| || || || ||||| ||||  || || |||||||
gtacgtgttatcttctttcattgttcttttaattacttctaccatttattcttttattgttcttttaattacttgtaccatttattcgtaacttattttatttttgggttcaaagttgataatgctactttttatgtaataatgttgaaattacttttcagGTCCGGCTGTGTTTAGACCGCCAAGATTATGTTCGTGCACAAATTCTCTCAAGGAAGATCAGCCCGAGGGTTTTCGATGCTGATTCTTCAAAAGAAAAGA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|27426310|gb|CA937830.1|CA937830
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|5342415|gb|AI794699.1|AI794699
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|120496298|gb|EH224465.1|EH224465
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|19271260|gb|BM887516.1|BM887516
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAA
EST: gi|18039945|gb|BM308239.1|BM308239
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|24206051|gb|BU965304.1|BU965304
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|37994245|gb|CF805991.1|CF805991
EST:     GCCATGGCCTAGACTGAGAAAATTGCACTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: GCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|26047818|gb|CA784480.1|CA784480
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|37997022|gb|CF808611.1|CF808611
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTG
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTG
EST: gi|17519815|gb|BM188857.1|BM188857
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|7925406|gb|AW831371.1|AW831371
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|308098502|gb|HO760243.1|HO760243
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|17400997|gb|BM177779.1|BM177779
EST:     TTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCATAACAA                         GTCCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTC
genomic: TTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC-GAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTC
EST: gi|151401327|gb|EV271141.1|EV271141
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|22541281|gb|BU091124.1|BU091124
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTCTGGTGTCTAGACCG-CAGGATTATGTTCGTGCACAAATACTCT
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTT-T-GTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCT
EST: gi|23731285|gb|BU763760.1|BU763760
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGGTCGTGGACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|7795120|gb|AW780517.1|AW780517
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|192295223|gb|FG986942.1|FG986942
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|17022950|gb|BM093984.1|BM093984
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|192309222|gb|FG999449.1|FG999449
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|12691513|gb|BG157849.1|BG157849
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|192299616|gb|FG989998.1|FG989998
EST:     CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA                         GTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggata ... aattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgtgtttcaatttagttgctgatttcagaatcttccatgtctaattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCCGATTTATCTAAGGAAAAGA
                                         gtctaat  putative branch site (score: 3)
       tttcaattta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgggatatttttgtgttactgtgatgacagcaatagcaggccatttatttcttgtgtttcaatttagttgctgatttcagaatcttccatgtctaattgtgtagGTCCGTTTGTGTCTAGATCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCCGATTTATCTAAGGAAAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA